RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5260
(142 letters)
>gnl|CDD|223737 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino
acid transport and metabolism].
Length = 387
Score = 60.7 bits (147), Expect = 9e-12
Identities = 36/126 (28%), Positives = 49/126 (38%), Gaps = 9/126 (7%)
Query: 10 PLQVWAPWLSHFYYLDYDVYIIPHSNGAVTLGGC-RHYDSYSRDISRHDT--ASILERCY 66
L D YI P +G + +GG D R D A +L
Sbjct: 241 GLLADGLAPVVLVVDDGGGYIRPRGDGRLRVGGTDEEGGDDPSDPEREDLVIAELLRVAR 300
Query: 67 SLLPRLEEAPVLYEWCGLRPHRSLVRVEIEQIGRL----KVIHNYGHGGYGVTTAPGTSR 122
+LLP L +A + W GLRP + + + IGR + GHGG+G T AP R
Sbjct: 301 ALLPGLADAGIEAAWAGLRPPTTPDGLPV--IGRAAPLPNLYVATGHGGHGFTLAPALGR 358
Query: 123 YAVQLV 128
L+
Sbjct: 359 LLADLI 364
>gnl|CDD|233831 TIGR02352, thiamin_ThiO, glycine oxidase ThiO. This family
consists of the homotetrameric, FAD-dependent glycine
oxidase ThiO, from species such as Bacillus subtilis
that use glycine in thiamine biosynthesis. In general,
members of this family will not be found in species such
as E. coli that instead use tyrosine and the ThiH
protein [Biosynthesis of cofactors, prosthetic groups,
and carriers, Thiamine].
Length = 337
Score = 52.4 bits (126), Expect = 7e-09
Identities = 30/108 (27%), Positives = 47/108 (43%), Gaps = 5/108 (4%)
Query: 24 LDYDVYIIPHSNGAVTLGGCRHYDSYSRDISRHDTASILERCYSLLPRLEEAPVLYEWCG 83
VYI+P +G + +G + + +L Y++LP L+EA +L W G
Sbjct: 228 YGRRVYIVPRRDGRLVVGATMEESGFDTTPTLGGIKELLRDAYTILPALKEARLLETWAG 287
Query: 84 LRPHRS--LVRV-EIEQIGRLKVIHNYGHGGYGVTTAPGTSRYAVQLV 128
LRP L + E + RL + GH G+ AP T+ L+
Sbjct: 288 LRPGTPDNLPYIGEHPEDRRL--LIATGHYRNGILLAPATAEVIADLI 333
>gnl|CDD|237093 PRK12409, PRK12409, D-amino acid dehydrogenase small subunit;
Provisional.
Length = 410
Score = 29.2 bits (66), Expect = 0.75
Identities = 38/124 (30%), Positives = 53/124 (42%), Gaps = 14/124 (11%)
Query: 15 APWLSHFYYLDYDVYIIPHSNGAVTL--GGCRHYDSYSRDISRHDTASIL----ERCYSL 68
APW+S LD I+ GA G ++ Y+RDI R D L R +
Sbjct: 292 APWVS---LLDDSAKIVTSRLGADRFRVAGTAEFNGYNRDI-RADRIRPLVDWVRRNF-- 345
Query: 69 LPRLEEAPVLYEWCGLRPHRSLVRVEIEQIGRLKVIHNYGHGGYGVTTAPGTSRYAVQLV 128
P + V+ W GLRP + + + R V +N GHG G T + T+ Q+V
Sbjct: 346 -PDVSTRRVV-PWAGLRPMMPNMMPRVGRGRRPGVFYNTGHGHLGWTLSAATADLVAQVV 403
Query: 129 KQAL 132
Q L
Sbjct: 404 AQKL 407
>gnl|CDD|182654 PRK10695, PRK10695, hypothetical protein; Provisional.
Length = 859
Score = 29.1 bits (66), Expect = 0.91
Identities = 22/97 (22%), Positives = 33/97 (34%), Gaps = 18/97 (18%)
Query: 11 LQVWAPWLSHFYYLDYDVYIIPHSNGAVTLGGCRHYDSYSRDISRHDTASILERCYSLLP 70
L YL D + SN ++ H + + DT ++ C S LP
Sbjct: 49 WTRGGLRLPDLRYLVGDCPLATVSNLSL-----SHPSRWRLNA---DTVTLDSACLSKLP 100
Query: 71 RLEEAPV----LYEWCGLRPHRSLVRVEIEQIGRLKV 103
EE+P L +W + P L I L +
Sbjct: 101 ASEESPAAPLTLAQWQSMLPETWL------NIDHLIL 131
>gnl|CDD|114274 pfam05543, Peptidase_C47, Staphopain peptidase C47. Staphopains
are one of four major families of proteinases secreted
by the Gram-positive Staphylococcus aureus. These
staphylococcal cysteine proteases are secreted as
preproenzymes that are proteolytically cleaved to
generate the mature enzyme.
Length = 174
Score = 28.4 bits (63), Expect = 1.1
Identities = 15/40 (37%), Positives = 18/40 (45%), Gaps = 7/40 (17%)
Query: 11 LQVWAPWLSHFYYLDYDVYIIPHSNGAVTLGGCRHYDSYS 50
+ +W PW + F D IIP SNG HY YS
Sbjct: 137 IIIWNPWDNGFMTQDAKSNIIPVSNG-------DHYQWYS 169
>gnl|CDD|185304 PRK15406, PRK15406, oligopeptide ABC transporter permease OppC;
Provisional.
Length = 302
Score = 28.3 bits (63), Expect = 1.5
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 7/55 (12%)
Query: 2 VCLLVCSTPLQVWAPWLSHFYYLDYDVYIIPHSNGAVTLGGCRHY---DSYSRDI 53
+ +LV + AP LS F Y D D ++ S+ G HY DS RD+
Sbjct: 43 LIVLVLIALFVILAPMLSQFAYDDTDWGMM--SSAPDMESG--HYFGTDSSGRDL 93
>gnl|CDD|185280 PRK15382, PRK15382, non-LEE encoded effector protein NleB;
Provisional.
Length = 326
Score = 27.9 bits (62), Expect = 1.9
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 58 TASILERCYSLLPRLEEAPVLYEWCGLRPHR 88
T S + Y L P E+ P+L++W RP R
Sbjct: 23 TVSFAGKEYELEPIDEKTPILFQWFEARPER 53
>gnl|CDD|213656 TIGR01838, PHA_synth_I, poly(R)-hydroxyalkanoic acid synthase,
class I. This model represents the class I subfamily of
poly(R)-hydroxyalkanoate synthases, which polymerizes
hydroxyacyl-CoAs with three to five carbons in the
hydroxyacyl backbone into aliphatic esters termed
poly(R)-hydroxyalkanoic acids. These polymers accumulate
as carbon and energy storage inclusions in many species
and can amount to 90 percent of the dry weight of cell
[Fatty acid and phospholipid metabolism, Biosynthesis].
Length = 532
Score = 27.7 bits (62), Expect = 2.4
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 6 VCSTPLQVWAPWLSHFYYLD 25
V TPL + PW++ +Y LD
Sbjct: 186 VHKTPLLIVPPWINKYYILD 205
>gnl|CDD|227851 COG5564, COG5564, Predicted TIM-barrel enzyme, possibly a
dioxygenase [General function prediction only].
Length = 276
Score = 26.7 bits (59), Expect = 4.1
Identities = 15/66 (22%), Positives = 26/66 (39%), Gaps = 5/66 (7%)
Query: 27 DVYIIPHSNGAVTLGGCRHYDSYSRDISRHDTASI-LERCYSLLPRLEEAPVLYEWCGLR 85
D+ I +S G S + ++ + I L+ +LP + + PVL G
Sbjct: 43 DLIYIYNSGRYRMAG----RGSLAGLLAYGNANDIVLDMAREVLPVVRQTPVLAGVNGTD 98
Query: 86 PHRSLV 91
P +V
Sbjct: 99 PFCRMV 104
>gnl|CDD|173821 cd07497, Peptidases_S8_14, Peptidase S8 family domain,
uncharacterized subfamily 14. This family is a member
of the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 311
Score = 26.7 bits (59), Expect = 4.4
Identities = 10/20 (50%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 106 NYGHGGYGVTTAPGTSRYAV 125
N G G YG TAPG + A+
Sbjct: 177 NGGPG-YGTITAPGAASLAI 195
>gnl|CDD|176212 cd08250, Mgc45594_like, Mgc45594 gene product and other MDR family
members. Includes Human Mgc45594 gene product of
undetermined function. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 329
Score = 26.8 bits (60), Expect = 4.8
Identities = 11/19 (57%), Positives = 13/19 (68%), Gaps = 1/19 (5%)
Query: 114 VTTAPG-TSRYAVQLVKQA 131
VT A G T ++AVQL K A
Sbjct: 145 VTAAAGGTGQFAVQLAKLA 163
>gnl|CDD|218970 pfam06278, DUF1032, Protein of unknown function (DUF1032). This
family consists of several conserved eukaryotic proteins
of unknown function.
Length = 565
Score = 26.8 bits (59), Expect = 5.0
Identities = 16/46 (34%), Positives = 19/46 (41%), Gaps = 9/46 (19%)
Query: 53 ISRHDTASILERCYSLLPRLEEAP----VLYE----WCGLRPHRSL 90
RH + I R Y L R++EAP L E W L P S
Sbjct: 230 RERHQ-SPIEPRRYRLRERVQEAPEPPSRLKETPDPWQLLDPFDSF 274
>gnl|CDD|217396 pfam03164, Mon1, Trafficking protein Mon1. Members of this family
have been called SAND proteins although these proteins
do not contain a SAND domain. In Saccharomyces
cerevisiae a protein complex of Mon1 and Ccz1 functions
with the small GTPase Ypt7 to mediate vesicle
trafficking to the vacuole. The Mon1/Ccz1 complex is
conserved in eukaryotic evolution and members of this
family (previously known as DUF254) are distant
homologues to domains of known structure that assemble
into cargo vesicle adapter (AP) complexes. describes
orthologues in Fugu rubripes.
Length = 413
Score = 26.6 bits (59), Expect = 5.0
Identities = 19/83 (22%), Positives = 23/83 (27%), Gaps = 19/83 (22%)
Query: 9 TPLQVWAPWLSHFYYLDYDVYIIPHSNGAVTLGGCRHYDSYSRDISR----------HDT 58
+ QV P L HF Y S+G T Y + R H
Sbjct: 294 SVSQVGIPELRHFLYK-------SKSSGQFTSPEFEA--PYPSEEERERLSALYQSLHSR 344
Query: 59 ASILERCYSLLPRLEEAPVLYEW 81
R L R+ E L W
Sbjct: 345 LHHKSRPLKLFYRVGEKENLLAW 367
>gnl|CDD|215903 pfam00405, Transferrin, Transferrin.
Length = 328
Score = 26.7 bits (59), Expect = 5.2
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 112 YGVTTAPGTSRYAVQLVKQ 130
YG P T YAV +VK+
Sbjct: 77 YGSKEEPQTHYYAVAVVKK 95
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.323 0.139 0.450
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,246,010
Number of extensions: 638995
Number of successful extensions: 489
Number of sequences better than 10.0: 1
Number of HSP's gapped: 484
Number of HSP's successfully gapped: 23
Length of query: 142
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 55
Effective length of database: 7,078,804
Effective search space: 389334220
Effective search space used: 389334220
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (24.5 bits)